Mercurial > repos > iuc > scanpy_filter

comparison filter.xml @ 8:f87ed6503715 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scanpy/ commit 7b8af82cb8a3438d2a6535986e357527e5c6efec"
author iuc
date Tue, 16 Mar 2021 13:00:13 +0000
parents 3c86f71498bc
children b409c2486353
comparison
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7:3c86f71498bc 8:f87ed6503715
348 <has_text_matching expression="min_disp=0.5"/> 348 <has_text_matching expression="min_disp=0.5"/>
349 <has_text_matching expression="n_bins=20"/> 349 <has_text_matching expression="n_bins=20"/>
350 <has_text_matching expression="subset=False"/> 350 <has_text_matching expression="subset=False"/>
351 </assert_contents> 351 </assert_contents>
352 </output> 352 </output>
353 <output name="anndata_out" file="pp.highly_variable_genes.seurat.blobs.h5ad" ftype="h5ad" compare="sim_size"/> 353 <output name="anndata_out" file="pp.highly_variable_genes.seurat.blobs.h5ad" ftype="h5ad" compare="sim_size" delta="100000" delta_frac="0.2"/>
354 </test> 354 </test>
355 <test> 355 <test>
356 <!-- test 5 --> 356 <!-- test 5 -->
357 <param name="adata" value="krumsiek11.h5ad" /> 357 <param name="adata" value="krumsiek11.h5ad" />
358 <conditional name="method"> 358 <conditional name="method">
374 <has_text_matching expression="n_top_genes=2"/> 374 <has_text_matching expression="n_top_genes=2"/>
375 <has_text_matching expression="n_bins=20"/> 375 <has_text_matching expression="n_bins=20"/>
376 <has_text_matching expression="subset=True"/> 376 <has_text_matching expression="subset=True"/>
377 </assert_contents> 377 </assert_contents>
378 </output> 378 </output>
379 <output name="anndata_out" file="pp.highly_variable_genes.krumsiek11-cell_ranger.h5ad" ftype="h5ad" compare="sim_size"/> 379 <output name="anndata_out" file="pp.highly_variable_genes.krumsiek11-cell_ranger.h5ad" ftype="h5ad" compare="sim_size" delta="100000" delta_frac="0.9"/>
380 </test> 380 </test>
381 <test> 381 <test>
382 <!-- test 6 --> 382 <!-- test 6 -->
383 <param name="adata" value="krumsiek11.h5ad" /> 383 <param name="adata" value="krumsiek11.h5ad" />
384 <conditional name="method"> 384 <conditional name="method">
442 <has_text_matching expression="total_counts=20000"/> 442 <has_text_matching expression="total_counts=20000"/>
443 <has_text_matching expression="random_state=0"/> 443 <has_text_matching expression="random_state=0"/>
444 <has_text_matching expression="replace=False"/> 444 <has_text_matching expression="replace=False"/>
445 </assert_contents> 445 </assert_contents>
446 </output> 446 </output>
447 <output name="anndata_out" file="pp.downsample_counts.random-randint.h5ad" ftype="h5ad" compare="sim_size"/> 447 <output name="anndata_out" file="pp.downsample_counts.random-randint.h5ad" ftype="h5ad" compare="sim_size" delta="10000000" delta_frac="0.5"/>
448 </test> 448 </test>
449 </tests> 449 </tests>
450 <help><![CDATA[ 450 <help><![CDATA[
451 451
452 Filter cells outliers based on counts and numbers of genes expressed (`pp.filter_cells`) 452 Filter cells outliers based on counts and numbers of genes expressed (`pp.filter_cells`)